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The Bangham Lab

The Bangham Lab is part of the UEA D’Arcy Thompson Centre for computational biology.

Computational Biology

<sgallery width="160" height="280" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="2000"> LabelledCropped_GPT_Snapdragon_2010-000250-0001.png LabelledCropped_GPT_Snapdragon_2010-000340-0001.png LabelledCropped_GPT_Snapdragon_2010-000490-0001.png LabelledCropped_GPT_Snapdragon_2010-000570-0002.png LabelledCropped_GPT_Snapdragon_2010-000570-0003.png LabelledCropped_GPT_Snapdragon_2010-000570-0004.png LabelledCropped_GPT_Snapdragon_2010-000570-0005.png LabelledCropped_GPT_Snapdragon_2010-000570-0007.png LabelledCropped_GPT_Snapdragon_2010-000570-0006.png LabelledCropped_GPT_Snapdragon_2010-000570-0001.png </sgallery> More on Snapdragon model	Genes and growing shapes The aim is to understand how patterns of gene activity in biological organs influence the developing shape. A key notion is that genes may regulate growth direction independently of growth rate. We formalised our ideas in the Growing Polarised Tissue Framework (ref). To make it easy to develop ideas on the relationship between growth and form we implemented a software package: GFtbox. Using GFtbox one can start with a simple sheet of tissue (the canvas), lay out experimentally observed, or hypothesised, patterns of regulator activity and then grow the canvas in 3D. The final shape can be compared quantitatively with it's biological counterpart - so testing the hypotheses. Downloads and more details on GFtbox	<sgallery width="160" height="280" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="3000"> LabelledCropped GPT Snapdragon 2010-000570-0003 double.png LabelledCropped GPT Snapdragon 2010-000570-0002 triple.png LabelledCropped GPT Snapdragon 2010-000570-0001-Wildtype.png </sgallery> More on testing models
<sgallery width="160" height="280" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="4000"> Arabidopsis_Leaf_ATH8bbg.png </sgallery> More on visualising 3D	Working with 3D volume images Three dimensional (3D) volume images are key to understanding the development of shape. They are produced by CT X-ray scanners, MRI and PET. However, biological gene activity is monitored using fluorescent probes and so optical methods are used: confocal microscopy and optical projection microscopy. The resulting images are large and are best viewed using software that exploits powerful graphics processors. We implemented VolViewer which is a viewer of choice in the open microscopy environment. Downloads and more details on VolViewer	<sgallery width="160" height="280" showarrows="false" showcarousel="false" showinfopane="false" timed="true" delay="4000"> Arabidopsis_Leaf_ATH8bbg.png </sgallery> More on 3D measurement